Evènements

Title Date de début Date de fin Pays Ville Description Site web
MCEB - Mathematical and Computational Evolutionary Biology 26-05-2019 30-05-2019 France Porquerolles Island

MCEB - Mathematical and Computational Evolutionary Biology – 2019, May 26-30

Porquerolles Island, South of France

 

  • Pre-registration and abstract submission deadline: 2019, February 10
  • Notification to applicants: 2019, March 10
  • Final list of attendees: 2019, April 14

 

Scope: Mathematical and computational tools and concepts form  an essential basis for modern evolutionary studies. The goal of the MCEB conference (at its 11th edition) is to bring together scientists with diverse backgrounds to present recent advances and discuss open problems in the field of mathematical and computational evolutionary biology.

The theme of this year's edition will be "Towards better trade-offs  between speed and accuracy for the analysis of very large data sets  in evolutionary biology". We will discuss the current solutions and  stimulate a larger debate on the most appropriate ways to make sense  of the wealth of genomic data currently available. General concepts,  models, methods and algorithms will also be presented and discussed,  just as during the previous conference editions.

 

Where and when: Porquerolles Island, near Hyères, in the South of France,

May 26-30, 2019. The conference will begin Sunday evening with an aperitif  and dinner, and will end at about 2pm on Thursday.

http://www.lirmm.fr/mceb2019/
Formation Elixir - Single cell RNA-seq data analysis with R 27-05-2019 29-05-2019 Finlande Helsinki

Registrations are open to first  ELIXIR EXCELERATE course "Single cell
RNA-seq data analysis with R" which takes place 27.-29.5.2019 at CSC in Espoo
(Helsinki), Finland.
This hands-on course covers several aspects of single cell RNA-seq data
analysis, ranging from clustering and differential gene expression analysis
to trajectories, cell type identification and spatial transcriptomics.
The course is organized by ELIXIR Finland in collaboration with ELIXIR
France, Norway, Germany, Netherlands and Sweden, and it is free of charge.

The application deadline for the course is 16.4.2019. Participants are
selected based on their motivation description, and we will also do our best
to ensure that every country / research group gets at least one
representative in the course.

For registration and more information, please
see the course website at https://www.csc.fi/web/training/-/scrnaseq

 

https://www.csc.fi/web/training/-/scrnaseq
EMBO Bioinformatics and genome analyses course 2019 16-06-2019 30-06-2019 Italie San Michele all'Adige

This EMBO Practical Course will cover a range of genome analyses and their fundamental elements.

The first principal theme of the course is comparative genomics, covering genome analysis and exploration, pair-wise and multiple comparisons of genomes and evolutionary inferences (orthologs, paralogs and their classification).

The second principal theme of the course is related to Next-Generation Sequencing data analyses, including sequence assembly methods, metagenomics and its applications as well as genomic structural variants.

Application is through the EMBO web site:
http://meetings.embo.org/event/19-genome-analyses

Deadline for application is March 31, 2019.

Course Poster can be downloaded from this link:
https://webext.pasteur.fr/tekaia/BCGA2019/Poster_pc19-genome-analyses.pdf

http://meetings.embo.org/event/19-genome-analyses
Journée Plan de Gestion des Données, retour d'expériences et atelier pratique 17-06-2019 17-06-2019 France Montpellier

Lundi 17 Juin 2019 c’est PGD, l’atelier !

Bonjour à tous

Nous vous proposons 3 journées thématiques centrées sur la Science ouverte et Reproductible. Ces journées se focalisent sur la mise en pratique.

Une première journée est organisée le Lundi 17 Juin 2019 à Montpellier SupAgro pour découvrir et pratiquer le Plan de Gestion des Données (PGD), la pierre angulaire de la gestion des données. L'adresse du site web de l'atelier est
https://pgd17juin2019.sciencesconf.org/
Vous y trouverez le programme, davantage de détails et des infos pratiques. Cette journée sera orientée vers l’opérationnel avec un atelier utilisant les données de vos propres projets.

Les deux journées suivantes seront axées respectivement sur le cycle de vie des données (mardi 22 octobre 2019, save the date !) et sur la reproductibilité des analyses (la dernière date sera précisée ultérieurement).

En attendant et pour aller plus loin :
Les données scientifiques constituent des ressources inestimables, acquises au prix de lourds investissements et d’effort de recherches répartis sur de longues années. A l’heure de l’économie du savoir, la bonne exploitation de ces données doit être considérée comme un enjeux primordial.
Ces données sont irremplaçables et doivent être protégées et gérées en vue d’assurer leur pérennité. Il est primordial de les gérer et de les archiver de façon à ce qu’elles demeurent intelligibles à long terme. Pour être efficacement exploitées, les données doivent être accessibles, utilisables et d’une qualité connue.

PGD : Réaliser un Plan de Gestion des Données (PGD) permet de mettre en place de bonnes pratiques dans le cadre d'un projet de recherche, d'une thèse ou d'une structure. Le PGD rassemble les règles de gestion et de documentation des données produites et/ou réutilisées, leurs modalités de partage, de conservation et de valorisation.

A très bientôt

L’équipe d’organisation (par ordre alphabétique)

Khalid Belkhir (ISEM, CNRS)
Alexandre Dehne Garcia (Ingenum, INRA)
Fred de Lamotte (AGAP, INRA)
Jean-François Martin (CBGP, Montpellier SupAgro)
Thibault Nidelet (SPO, INRA)
Marie-Claude Quidoz (CEFE, CNRS)

https://pgd17juin2019.sciencesconf.org/
MODÉLISATION FORMELLE DE RÉSEAUX DE RÉGULATION BIOLOGIQUE (École CNRS) 23-06-2019 28-06-2019 France Ile de Porquerolles

PRÉSENTATION

Les méthodes formelles issues de l'informatique se sont avérées très efficaces pour modéliser les réseaux de régulation biologique et élucider les liens de causalités entre interactions moléculaires d'une part, et phénotypes biologiques d'autre part.

La modélisation formelle des réseaux de régulation biologique participe activement aux avancées en « biologie des systèmes » et en « biologie synthétique » qui sont devenues des thèmes prioritaires de recherche pluridisciplinaire entre biologie, informatique, mathématique et physique-chimie théorique.

Il s'avère que la communauté francophone est à la pointe de la recherche mondiale dans ce domaine et cette école, francophone, présente une palette complète des différents cadres de modélisations (un par demi-journée). Les modalités pédagogiques ouvrent de nombreuses plages durant lesquels les participants interagissent largement avec les intervenants.

http://www.i3s.unice.fr/bioregul/
International Summer School on Networks and Evolution, 3rd edition 23-06-2019 29-06-2019 France Roscoff

Introduction to the concepts and methods of networks in evolutionary studies (sequence similarity networks, genome networks and multipartite graphs)

This free summer school will be held in Roscoff, France, between June 23rd 2019 (date of arrival) and June 29th (date of departure).

This school is designed in priority for biologists and bio-informaticians (completing a PhD degree or currently post-doctoral fellows, as well as researchers), who wish to learn the bases of network analyses.

The main notions (regarding various types of networks, the relevance of their analyses, and some bases in graph theory) will be introduced by short theoretical classes, followed by practical case-studies, introducing the basics in programming required to run such network analyses as well as to use the existing software/tools. Our goal is that, by the end of this summer school, all applicants will be qualified to perform network analyses of their own datasets.

More precisely, we will focus on the following concepts and methods:

- Introgressive evolution and large-scale diversity studies.

- Construction and analysis of sequence similarity networks (construction and sorting of connected components, definition of gene families, search for composite genes, implementation of centrality measures)

- Construction and analysis of genome networks (construction of weighted genome networks, implementation of their diameter, shortest paths, analyses of labeled nodes, etc.)

- Construction and analysis of gene-genome bipartite graphs (detection of connected components, and their articulation points, and twins)

In addition, 9 conferences on networks and evolution will be delivered by leading European and North American scientists during this school.

Confirmed speakers (complete list):

Pr. JP Gogarten (UConn, USA): Lateral Gene Transfer and Prokaryotic evolution

Pr. Robert Beiko (Dalhousie University, Canada) : Introduction to phylogenetic networks

Dr. Eric Bapteste (UPMC, France): Introduction to sequence similarity networks

Pr. Debashish Bhattacharya (U. Rutgers, USA): Reticulate evolution in eukaryotes

Pr. Eugene Koonin (NCBI, USA) : Viruses and networks

Pr. Michel Habib (LIAFA, France): Networks and centralities

Dr. Damien Eveillard (U. Nantes, France): Co-occurrence networks and the evolution of geochemical cycles in the environment

Pr. Daniel Huson (U Tuebingen, Germany): Network approaches in microbiome analysis

Pr. Marc-André Sélosse (MNHN, France): The living world as a network

This summer school is funded by ERC grant (FP7/2007-2013 Grant Agreement # 615274). Hence, registration is free, housing and food (breakfast, lunch) are also fully covered. Applicants will only need to fund their travel to Roscoff and their evening dinners.

10 places only are available, with a mandatory requirement: applicants must show basic computer skills (i.e. to be familiar with Linux environment and with at least one programming language, preferably Python).
Applications are to be submitted asap, and no later than February 15th 2019, by email to :

eric.bapteste@upmc.fr , and contain a brief letter describing why this class will be of significant interest for the applicant and his/her future studies.

Applicants will be selected based on their motivation, and their resume, including the names of two scientific referees for PhD and postdoctoral fellows.

We are excited to meet you soon in Roscoff.

Eric Bapteste + Philippe Lopez + Eduardo Corel

http://www.evol-net.fr/
eX Modelo summer school on simulation model exploration 23-06-2019 28-06-2019 France Châtenay-sur-Seine

eX Modelo is a research school on the exploration of simulation models (sensitivity analysis, calibration, validation, etc.) that will be held from June 23 to 28, 2019 in a rural setting 1 hour from Paris.

This thematic school is intended for postgraduate students, engineers, academic researchers and companies interested in modelling, whatever their scientific field. The objective is to teach participants to become autonomous in exploring their models, in a friendly environment.

The courses, labs and feedback will be lead by a network of researchers who have a recognized expertise in these transdisciplinary practices.

During this week of training, you will discover step by step advanced methods for model exploration. There will be theoretical sessions as well as practical group workshops on adapted case studies.

The OpenMOLE platform (https://www.openmole.org), specially dedicated to the exploration of numerical models, will be used throughout the week to facilitate the understanding and implementation of practical cases.

https://exmodelo.org/
2019 Galaxy Community Conference (GCC2019) 01-07-2019 08-07-2019 Allemagne Freiburg

The 2019 Galaxy Community Conference (GCC2019) will be held 1-8 July in Freiburg, Germany. GCC brings together hundreds of faculty, clinicians, researchers, and students, all working in and supporting data intensive science that is accessible, sharable and reproducible.

GCC2019 features oral presentations, lightning talks, posters, demos, birds-of-a-feather gatherings (BoFs), training, a CollaborationFest, and plenty of opportunities for networking.

Presentations will cover the full spectrum of Galaxy applications, enhancements and deployments. If you are working in data intensive science then GCC2019 is an ideal conference for sharing your work, learning from others, and finding new collaborators.

 

About Galaxy

Galaxy (https://galaxyproject.org/) is a platform for data integration and analysis in the life sciences. It enables researchers to build, run, share, and repeat their own complex computational analyses using only a web browser and without having to first learn system administration and command line interfaces.

The Galaxy Project is driven by a vibrant community who publish workflows and analyses, wrap new tools, maintain and enhance the source code, provide support, and write documentation and training materials. Galaxy is open-source and freely available, and is deployed in hundreds of organizations, running on everything from laptops through supercomputers to public and private clouds. Over 150 of these platforms are publicly available and can be used with little or no setup.  Thousands of tools have been ported to Galaxy ("wrapped") and are deployable from the Galaxy Tool Shed. Galaxy was developed to support life science research, but the software is domain agnostic and is now used in domains as diverse as natural language processing, constructive solid geometry, and social science.

https://galaxyproject.org/gcc2019
JOBIM 2019 02-07-2019 05-07-2019 France Nantes

JOBIM 2019 - NANTES - 2 au 5 Juillet 2019

 

JOBIM (Journées Ouvertes Biologie, Informatique et Mathématiques) est l'événement annuel permettant de réunir la communauté des acteurs de la bioinformatique. Cette conférence est l’occasion de découvrir les avancées scientifiques et techniques en analyse, comparaison et exploitation des données biologiques.

JOBIM se veut un lieu de rencontre transdisciplinaire dans un cadre convivial favorisant les échanges. 

https://jobim2019.sciencesconf.org/
Ecological and Evolutionary Genomics 14-07-2019 19-07-2019 États-Unis Manchester, NH

How Genomes Illuminate Our Understanding of Ecological and Evolutionary Processes

Ecological and Evolutionary Genomics

Gordon Research Conference

Meeting description

Genomics tools have never been so powerful and accessible to biologists interested in how the interplay between ecological and evolutionary forces is shaping biodiversity. The 2019 Gordon Research Conference on Ecological and Evolutionary Genomics will explore how the genome-scale processes that underpin organismal phenotypes interact with ecological and evolutionary processes over multiple spatiotemporal scales. The meeting will be preceded by a Gordon Research Seminar (GRS), which will provide opportunities for early career researchers (students and postdocs) to present their projects and will include a special mentorship session.

Topics highlighted at the meeting will include: the ecological and evolutionary significance of novel genes and variation in genome architecture, including genomic conflicts; the role of hybridization and introgression as drivers of diversity; genome-scale perspectives on the role of the microbiome in host adaptations; and the increasing contribution of genomics to explanations of ecosystem function. This meeting will also bring the latest technological developments in genomics and genome manipulation, emphasizing their application to non-model species. Join us to participate in creative discussions in an inclusive social and scientific atmosphere, to empower the future research in the field.

https://www.grc.org/ecological-and-evolutionary-genomics-conference/2019/
ISMB / ECCB 2019 21-07-2019 25-07-2019 Suisse Basel

ISMB/ECCB 2019 

ISMB/ECCB 2019 is the largest and most high profile annual meeting of scientists working in computational biology and provides an intense multidisciplinary forum for disseminating the latest developments in computational tools for data driven biological research. The conference’s rigorous focus on computation and methodology coupled with outstanding biology is a must attend! Featuring the ISCB Communities of Special Interest, ISMB/ECCB 2019 will spike your curiosity, deliver the latest research in the field, and allow you to connect, collaborate and engage. Join us in Basel!

https://www.iscb.org/ismbeccb2019
SMBE 21-07-2019 25-07-2019 Royaume-Uni Manchester

Annual meeting of the SMBE (Society for Molecular Biology & Evolution)

We're delighted to announce that the Society for Molecular Biology & Evolution is now accepting proposals for symposium topics for the 2019 Annual Meeting, taking place in Manchester, United Kingdom, from 21st – 25th July 2019.

Proposals will be reviewed by the committee with around 20-30 topics selected for inclusion within the scientific programme.

http://smbe2019.org/call-for-symposia/
Workshop on Algorithms in Bioinformatics (WABI) 2019 08-09-2019 10-09-2019 États-Unis Niagara Falls, NY

The Workshop on Algorithms in Bioinformatics (WABI), established in 2001, is one of the major annual conferences on algorithms in bioinformatics. WABI 2019 will be held on September 8-10 in Niagara Falls, NY, USA, together with ACM-BCB 2019.

 

Scope

All research in algorithmic work in bioinformatics, computational biology and systems biology. The emphasis is mainly on discrete algorithms and machine-learning methods that address important problems in molecular biology, that are founded on sound models, that are computationally efficient, and that have been implemented and tested in simulations and on real datasets. The goal is to present recent research results, including significant work-in-progress, and to identify and explore directions of future research.

http://acm-bcb.org/WABI/2019/index.php
German Conference on Bioinformatics (GCB2019) 16-09-2019 19-09-2019 Allemagne Heidelberg

The 2019 edition of the German Conference on Bioinformatics (GCB2019) will take place in Heidelberg 16-19 September 2019 (https://gcb2019.de/). 

It will bring together a large bioinformatics community from Germany and abroad, with around 250-300 attendees expected.

This year's conference will focus in particular on topics of medical informatics and computational approaches in disease.

https://gcb2019.de/
SysBioCancer2019: 2nd course on Computational Systems Biology of Cancer: Single Cell Analysis 23-09-2019 28-09-2019 France Paris

We are glad to announce the second international multidisciplinary course entitled ‘Computational Systems Biology of Cancer: Single Cell Analysis’.

SysBioCancer2019 - Institut Curie, Paris, France

https://training.institut-curie.org/courses/sysbiocancer2019

https://easychair.org/cfp/SysBioCancer2019

Course objective

To improve interpretation and use of omics data that nowadays are accumulated in any biological or medical lab.  This year, the course will particularly focus on SysBio approaches for single cell data analysis. We will review current methods and tools for the analysis and interpretation of single cell data, along with concrete applications related to cancer. In particular, we will emphasize the role of single cell data research for understanding the heterogeneity of tumor.

 

https://training.institut-curie.org/courses/sysbiocancer2019
The 23rd Evolutionary Biology Meeting at Marseilles 24-09-2019 29-09-2019 France Marseilles

23rd Evolutionary Biology Meeting at Marseilles,

September 24-27,2019 Marseilles FRANCE

twetter : EvolBiolMeetingMarseilles

Presentation  

The Evolutionary Biology Meeting at Marseilles is an annual congress which has gathered high level experts in evolutionary biology since its creation in 1997.

If the congress was initially a local meeting, it quickly gained an important weight in the scientific life. Indeed, whereas the number of participants has been increasing, the geographical origin of the researchers has been diversifying and widening year by year.

Today, the Evolutionary Biology Meeting at Marseilles has reached a worldwide dimension and plays a paramount role in the international scientific life: allowing the gathering of high level specialists, it encourages the exchange of ideas and stimulates the works of the researchers all through the world.

http://aeeb.fr/23rd-evolutionary-biology-meeting-at-marsei/
RECOMB COMPARATIVE GENOMICS 2019 01-10-2019 04-10-2019 France Montpellier
RECOMB COMPARATIVE GENOMICS 2019

17th RECOMB Satellite Conference on Comparative Genomics, RECOMB-CG 2019


SCOPE

The annual RECOMB Comparative Genomics Satellite Conference (RECOMB-CG) brings
together leading researchers in the mathematical, computational and life
sciences to discuss cutting edge research in comparative genomics, with  an
emphasis on computational approaches and the analysis of novel experimental
results. The program will include keynote talks, contributed talks, and a
poster session.

The 17th RECOMB-CG conference will be held in Montpellier, France, October
1-4 2019 (https://recombcg2019.bitbucket.io). With this Call for Papers we
invite high-quality original full papers on topics related to the conference
theme. A detailed call for posters will be published later on the conference
web page.


TOPICS

Papers are solicited on, but not limited to, the following topics:
- genome evolution
- genome rearrangements
- genome variation, diversity and dynamics
- phylogenomics
- comparative tools for genome assembly
- population genomics
- comparison of functional networks
- comparative epigenomics
- paleogenomics
- cancer evolution genomics
- epidemiology
- gene identification and/or annotation
https://recombcg2019.bitbucket.io
4th Disease Maps Community Meeting (DMCM2019) 02-10-2019 04-10-2019 Espagne Seville

We are glad to announce the 4th Disease Maps Community Meeting (DMCM2019) that will take place 2nd - 4th October in Hospital Virgen del Rocio, Sevilla, Spain (http://disease-maps.org/DMCM2019).

 

The event is held on yearly basis and presents advances in our knowledge on the molecular mechanisms of diseases, in mathematical modelling for understanding their progression and in developing software for supporting maps and carrying out different types of analyses. The meeting includes not only presentations and posters but also software demos and discussions on hot topics in systems medicine. Please see, for example, the outcome of the Luxembourg meeting discussions recently published in Briefings in Bioinformatics (https://doi.org/10.1093/bib/bby024).

Key dates

Abstract submission deadline: 1 August

Decision on abstract selection: 2 September

Registration deadline: 10 September

DMCM2019: 2-3 October

Submissions

Contributions are welcome for oral presentations, posters, software demos or topics for discussion. Please, send abstracts through: https://easychair.org/conferences/?conf=dmcm2019  

http://disease-maps.org/DMCM2019
Probabilistic Modeling in Genomics (ProbGen) meeting 06-10-2019 09-10-2019 France Aussois

We are pleased to announce the 5th Probabilistic Modeling in Genomics meeting (ProbGen19), to be held in Aussois, in the French Alps, Oct 6-9, 2019

 The goal of this meeting is to cover a wide variety of topics in genomics, ranging from population genomics to systems biology and cancer genomics, with a particular focus on the use of novel mathematical and computational models and inference methods to address timely and important biological questions. What makes the meeting special, in our view, is that it has substantial mathematical and theoretical depth yet remains well grounded in the practical and scientific concerns of modern genomics. We invite abstract submissions on a range of topics including functional genomics, molecular evolution, phylogenetics, epidemiology, methods for genome-wide association studies, quantitative genetics, etc…

We will have three keynote speakers:

Barbara Engelhardt (Princeton University)

Gil McVean (Big Data Institute, University of Oxford)

Caroline Colijn (Simon Fraser University, Vancouver)

Alongside invited speakers, oral presentations will be selected from submitted abstracts. We particularly encourage abstract submissions from junior investigators, including postdoctoral fellows and graduate students. A few grants will be available for students and postdocs.

 

 

https://probgen2019.sciencesconf.org
Artificial Evolution 2019 (EA-2019) 28-10-2019 30-10-2019 France Mulhouse

The Biennial International Conference on Artificial Evolution (EA-2019) will celebrate its 14th anniversary from 28 to 30 October 2019 in Mulhouse, France.

Topics of interest : 
Authors are invited to submit original papers related, but not limited to :
- Evolutionary computation, evolutionary optimization, coevolution, natural computing, soft computing.
- Artificial Life, population dynamics.
- Theory, algorithm design and evaluation, implementations, parallelizations.
- Application of evolutionary paradigms to the real world (biosciences, industry, socioeconomic sciences etc).
- Biologically-inspired metaheuristics (swarm intelligence, articial ants, artificial immune systems, cultural algorithms, etc).
- Memetic algorithms, multi-objective optimization, interactive optimization, constraint handling, dynamic optimization, etc.
- Hybridization with other soft computing techniques like machine Learning or fuzzy logic.
- Evolutionary robotics, education, visualization, interactive design and artistic applications.

https://ea2019.inria.fr/
EBAI2019: Initiation au traitement des données de génomique obtenues par séquençage à haut débit 03-11-2019 08-11-2019 France Roscoff

8ème école de bioinformatique AVIESAN-IFB - Initiation au traitement des données de génomique obtenues par séquençage à haut débit

Objectifs

La formation s’adresse à des biologistes directement impliqués dans des projets “Next Generation Sequencing” (NGS). Cette édition de l’école aborde les nouveaux enjeux technologiques: elle s’articulera autour de trois ateliers thématiques en session parallèle (RNA-seq, ChIP-seq/ATAC-seq, variants DNA-seq), et inclura une introduction à l’intégration des données, une ouverture aux approches “single-cell” ainsi qu’aux technologies “long reads”.

L’école vise à introduire les concepts et à manipuler les outils informatiques et à en interpréter les résultats. Elle est basée sur une alternance de courtes sessions théoriques et d’ateliers pratiques. Les participants bénéficieront d’un tutorat personnalisé pour élaborer leur plan d’analyse, et effectuer les premières étapes de traitement de leurs propres données ou de celles de leur plateforme.

Attention : le tutorat n'a pas pour vocation de réaliser l’analyse complète des données des participants.

 

http://www.france-bioinformatique.fr/ebai2019